内源性副逆转录病毒序列广泛存在于 Citrinae 基因组中。

Endogenous pararetrovirus sequences are widely present in Citrinae genomes.

机构信息

Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, China.

出版信息

Virus Res. 2019 Mar;262:48-53. doi: 10.1016/j.virusres.2018.05.018. Epub 2018 May 21.

DOI:10.1016/j.virusres.2018.05.018

PMID:29792903

Abstract

Endogenous pararetroviruses (EPRVs) are characterized in several plant genomes and their biological effects have been reported. In this study, hundreds of EPRV segments were identified in six Citrinae genomes. A total of 1034 EPRV segments were identified in the genomes of sweet orange, 2036 in pummelo, 598 in clementine mandarin, 752 in Ichang papeda, 2060 in citron and 245 in atalantia. Genomic analysis indicated that EPRV segments tend to cluster as hot spots in the genomes, particularly on chromosome 2 and 5. Large numbers of simple repeats and transposable elements were identified in the 2-kb flanking regions of the EPRV segments. Comparative genomic analysis and PCR experiments showed that there are highly conserved EPRV segments and species-specific EPRV segments between the Citrinae genomes. Phylogenetic analysis suggested that the integration events of EPRVs could initiate in a common progenitor of Citrinae species and repeatedly occur during the Citrinae divergence.

摘要

内源性反转录病毒 (EPRV) 在几种植物基因组中具有特征，其生物学效应已有报道。在这项研究中，在六个柑橘基因组中鉴定了数百个 EPRV 片段。在甜橙基因组中鉴定出 1034 个 EPRV 片段，在柚子中鉴定出 2036 个，在克莱门氏小柑橘中鉴定出 598 个，在宜昌橙中鉴定出 752 个，在香橼中鉴定出 2060 个，在Atalantia 中鉴定出 245 个。基因组分析表明，EPRV 片段倾向于在基因组中聚集为热点，特别是在染色体 2 和 5 上。在 EPRV 片段的 2kb 侧翼区域中鉴定出大量简单重复序列和转座元件。比较基因组分析和 PCR 实验表明，柑橘属基因组之间存在高度保守的 EPRV 片段和种特异性 EPRV 片段。系统发育分析表明，EPRVs 的整合事件可能发生在柑橘属物种的共同祖先中，并在柑橘属分化过程中反复发生。